noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.2.1.2.6) Plots of Abundance.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.2.1.2.6.2) Iterating over all combinations of grouping variables
(1.2.1.2.6.2.1) Grouping variables Sample.type
(1.2.1.2.6.2.2) Iterating over Abundance. profile sorting order
(1.2.1.2.6.2.2.1) Abundance. profile sorting order: average abundance
(1.2.1.2.6.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.2.1.2.6.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.2.1.2.6.2.2.2.1.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.2.6.2.2.2.1.1.0) Table 80. Data table used for plots. Data grouped by Sample.type. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.2.6.2.2.2.1.1.0-323902755.1.2.1.2.6.2.2.2.1.1.csv

.record.id Sample.type feature Abundance
SB1 control Bacteroidales 6.847e-01
SB10 control Bacteroidales 5.637e-01
SB11 patient Bacteroidales 7.549e-01
SB12 control Bacteroidales 0.000e+00
SB13 control Bacteroidales 2.192e-01
SB14 control Bacteroidales 7.866e-01
SB15 control Bacteroidales 5.338e-01
SB16 patient Bacteroidales 8.184e-01
SB17 patient Bacteroidales 8.665e-01
SB18 patient Bacteroidales 8.870e-01
SB19 control Bacteroidales 2.318e-01
SB21 control Bacteroidales 1.706e-01
SB22 patient Bacteroidales 6.107e-01
SB23 patient Bacteroidales 7.781e-01
SB24 control Bacteroidales 7.186e-01
SB25 control Bacteroidales 6.151e-01
SB26 control Bacteroidales 5.050e-01
SB28 patient Bacteroidales 6.904e-01
SB29 patient Bacteroidales 9.046e-01
SB3 control Bacteroidales 4.112e-01
SB30 patient Bacteroidales 8.563e-01
SB31 control Bacteroidales 6.462e-01
SB32 control Bacteroidales 4.112e-01
SB33 control Bacteroidales 8.224e-01
SB34 patient Bacteroidales 7.837e-01
SB35 patient Bacteroidales 9.715e-01
SB36 patient Bacteroidales 8.668e-01
SB38 patient Bacteroidales 9.342e-01
SB39 patient Bacteroidales 5.559e-01
SB4 patient Bacteroidales 9.322e-01
SB40 control Bacteroidales 5.366e-01
SB41 patient Bacteroidales 9.279e-01
SB42 patient Bacteroidales 6.376e-01
SB43 patient Bacteroidales 8.858e-01
SB44 patient Bacteroidales 8.254e-01
SB45 control Bacteroidales 8.778e-01
SB5 patient Bacteroidales 9.827e-02
SB6 patient Bacteroidales 8.250e-01
SB7 control Bacteroidales 4.786e-01
SB8 patient Bacteroidales 5.680e-01
SB9 patient Bacteroidales 6.361e-02
SB1 control Clostridiales 1.664e-01
SB10 control Clostridiales 3.025e-01
SB11 patient Clostridiales 1.670e-01
SB12 control Clostridiales 3.292e-01
SB13 control Clostridiales 6.268e-01
SB14 control Clostridiales 1.877e-01
SB15 control Clostridiales 2.131e-01
SB16 patient Clostridiales 1.038e-01
SB17 patient Clostridiales 8.129e-02
SB18 patient Clostridiales 2.821e-02
SB19 control Clostridiales 3.252e-01
SB21 control Clostridiales 7.320e-01
SB22 patient Clostridiales 2.891e-01
SB23 patient Clostridiales 1.938e-01
SB24 control Clostridiales 2.252e-01
SB25 control Clostridiales 2.988e-01
SB26 control Clostridiales 4.550e-01
SB28 patient Clostridiales 4.996e-02
SB29 patient Clostridiales 8.819e-02
SB3 control Clostridiales 5.011e-01
SB30 patient Clostridiales 9.994e-02
SB31 control Clostridiales 3.152e-01
SB32 control Clostridiales 4.996e-01
SB33 control Clostridiales 1.502e-01
SB34 patient Clostridiales 1.709e-01
SB35 patient Clostridiales 2.529e-02
SB36 patient Clostridiales 7.040e-02
SB38 patient Clostridiales 4.334e-02
SB39 patient Clostridiales 1.723e-01
SB4 patient Clostridiales 5.216e-02
SB40 control Clostridiales 3.756e-01
SB41 patient Clostridiales 6.299e-02
SB42 patient Clostridiales 2.363e-01
SB43 patient Clostridiales 5.785e-02
SB44 patient Clostridiales 1.565e-01
SB45 control Clostridiales 6.822e-02
SB5 patient Clostridiales 6.445e-01
SB6 patient Clostridiales 1.294e-01
SB7 control Clostridiales 4.844e-01
SB8 patient Clostridiales 3.925e-01
SB9 patient Clostridiales 3.018e-01
SB1 control Erysipelotrichales 9.093e-04
SB10 control Erysipelotrichales 5.791e-02
SB11 patient Erysipelotrichales 1.339e-02
SB12 control Erysipelotrichales 0.000e+00
SB13 control Erysipelotrichales 5.062e-02
SB14 control Erysipelotrichales 2.063e-03
SB15 control Erysipelotrichales 8.963e-04
SB16 patient Erysipelotrichales 2.813e-02
SB17 patient Erysipelotrichales 2.444e-03
SB18 patient Erysipelotrichales 1.550e-03
SB19 control Erysipelotrichales 1.761e-04
SB21 control Erysipelotrichales 4.859e-03
SB22 patient Erysipelotrichales 8.445e-03
SB23 patient Erysipelotrichales 1.425e-02
SB24 control Erysipelotrichales 1.291e-03
SB25 control Erysipelotrichales 7.673e-03
SB26 control Erysipelotrichales 8.864e-03
SB28 patient Erysipelotrichales 1.180e-02
SB29 patient Erysipelotrichales 1.440e-03
SB3 control Erysipelotrichales 2.073e-03
SB30 patient Erysipelotrichales 1.181e-02
SB31 control Erysipelotrichales 1.377e-02
SB32 control Erysipelotrichales 1.006e-02
SB33 control Erysipelotrichales 2.354e-03
SB34 patient Erysipelotrichales 1.238e-02
SB35 patient Erysipelotrichales 0.000e+00
SB36 patient Erysipelotrichales 0.000e+00
SB38 patient Erysipelotrichales 1.457e-03
SB39 patient Erysipelotrichales 2.415e-02
SB4 patient Erysipelotrichales 6.030e-03
SB40 control Erysipelotrichales 7.497e-03
SB41 patient Erysipelotrichales 7.525e-04
SB42 patient Erysipelotrichales 6.306e-03
SB43 patient Erysipelotrichales 8.639e-03
SB44 patient Erysipelotrichales 4.942e-03
SB45 control Erysipelotrichales 4.583e-03
SB5 patient Erysipelotrichales 4.750e-02
SB6 patient Erysipelotrichales 2.595e-03
SB7 control Erysipelotrichales 7.360e-03
SB8 patient Erysipelotrichales 1.244e-02
SB9 patient Erysipelotrichales 3.874e-01
SB1 control Enterobacteriales 4.546e-04
SB10 control Enterobacteriales 8.516e-05
SB11 patient Enterobacteriales 8.929e-04
SB12 control Enterobacteriales 3.081e-01
SB13 control Enterobacteriales 4.401e-04
SB14 control Enterobacteriales 0.000e+00
SB15 control Enterobacteriales 4.137e-04
SB16 patient Enterobacteriales 1.489e-02
SB17 patient Enterobacteriales 2.572e-04
SB18 patient Enterobacteriales 0.000e+00
SB19 control Enterobacteriales 1.761e-03
SB21 control Enterobacteriales 3.059e-03
SB22 patient Enterobacteriales 3.839e-04
SB23 patient Enterobacteriales 0.000e+00
SB24 control Enterobacteriales 2.869e-04
SB25 control Enterobacteriales 5.328e-03
SB26 control Enterobacteriales 0.000e+00
SB28 patient Enterobacteriales 2.380e-01
SB29 patient Enterobacteriales 0.000e+00
SB3 control Enterobacteriales 4.145e-04
SB30 patient Enterobacteriales 0.000e+00
SB31 control Enterobacteriales 6.593e-04
SB32 control Enterobacteriales 0.000e+00
SB33 control Enterobacteriales 0.000e+00
SB34 patient Enterobacteriales 8.659e-05
SB35 patient Enterobacteriales 0.000e+00
SB36 patient Enterobacteriales 0.000e+00
SB38 patient Enterobacteriales 0.000e+00
SB39 patient Enterobacteriales 0.000e+00
SB4 patient Enterobacteriales 0.000e+00
SB40 control Enterobacteriales 3.570e-04
SB41 patient Enterobacteriales 0.000e+00
SB42 patient Enterobacteriales 0.000e+00
SB43 patient Enterobacteriales 2.912e-04
SB44 patient Enterobacteriales 1.098e-03
SB45 control Enterobacteriales 1.498e-03
SB5 patient Enterobacteriales 1.462e-01
SB6 patient Enterobacteriales 0.000e+00
SB7 control Enterobacteriales 0.000e+00
SB8 patient Enterobacteriales 2.690e-03
SB9 patient Enterobacteriales 3.408e-03
SB1 control Lactobacillales 2.273e-04
SB10 control Lactobacillales 1.703e-03
SB11 patient Lactobacillales 0.000e+00
SB12 control Lactobacillales 6.832e-02
SB13 control Lactobacillales 8.803e-04
SB14 control Lactobacillales 0.000e+00
SB15 control Lactobacillales 7.612e-02
SB16 patient Lactobacillales 1.241e-03
SB17 patient Lactobacillales 6.431e-04
SB18 patient Lactobacillales 7.278e-02
SB19 control Lactobacillales 1.862e-01
SB21 control Lactobacillales 4.319e-03
SB22 patient Lactobacillales 3.071e-03
SB23 patient Lactobacillales 1.345e-04
SB24 control Lactobacillales 8.606e-04
SB25 control Lactobacillales 2.131e-03
SB26 control Lactobacillales 2.955e-03
SB28 patient Lactobacillales 7.868e-04
SB29 patient Lactobacillales 0.000e+00
SB3 control Lactobacillales 2.073e-04
SB30 patient Lactobacillales 1.514e-04
SB31 control Lactobacillales 3.663e-04
SB32 control Lactobacillales 1.393e-03
SB33 control Lactobacillales 2.871e-04
SB34 patient Lactobacillales 4.329e-04
SB35 patient Lactobacillales 1.606e-03
SB36 patient Lactobacillales 3.805e-04
SB38 patient Lactobacillales 1.821e-04
SB39 patient Lactobacillales 4.831e-03
SB4 patient Lactobacillales 3.316e-03
SB40 control Lactobacillales 3.570e-04
SB41 patient Lactobacillales 8.853e-05
SB42 patient Lactobacillales 1.443e-03
SB43 patient Lactobacillales 9.707e-05
SB44 patient Lactobacillales 0.000e+00
SB45 control Lactobacillales 8.814e-05

(1.2.1.2.6.2.2.2.1.1.1) Widget 83. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Sample.type. Click to see HTML widget file in full window: ./1.2.1.2.6.2.2.2.1.1.1-3234ef86c97Dynamic.Pivot.Table.html

(1.2.1.2.6.2.2.2.1.1.1) Widget 84. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Sample.type. Click to see HTML widget file in full window: ./1.2.1.2.6.2.2.2.1.1.1-3232d1a2e79Dynamic.Pivot.Table.html

(1.2.1.2.6.2.2.2.1.1.1) Table 81. Summary table. Data grouped by Sample.type. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.2.6.2.2.2.1.1.1-323594fa307.1.2.1.2.6.2.2.2.1.1.csv

feature Sample.type mean sd median incidence
Bacteroidales control 0.511832 0.239472 0.5351889 0.9444
Bacteroidales patient 0.740992 0.239866 0.8249907 1.0000
Clostridiales control 0.347568 0.174598 0.3201683 1.0000
Clostridiales patient 0.157280 0.143410 0.1038477 1.0000
Erysipelotrichales control 0.010164 0.016550 0.0047209 0.9444
Erysipelotrichales patient 0.026427 0.079443 0.0084453 0.9130
Enterobacteriales control 0.017938 0.072435 0.0004141 0.7222
Enterobacteriales patient 0.017748 0.056816 0.0000000 0.4783
Lactobacillales control 0.019331 0.047554 0.0011368 0.9444
Lactobacillales patient 0.013436 0.041571 0.0007868 0.8696
Selenomonadales control 0.023254 0.052474 0.0023987 0.9444
Selenomonadales patient 0.006142 0.013003 0.0015134 0.9130
Unclassified_Bacteria control 0.014396 0.011932 0.0127252 1.0000
Unclassified_Bacteria patient 0.008586 0.018505 0.0036576 0.9565
Burkholderiales control 0.011906 0.027646 0.0021670 0.8333
Burkholderiales patient 0.009077 0.014573 0.0018089 0.7826
Bifidobacteriales control 0.015061 0.044413 0.0018888 0.8333
Bifidobacteriales patient 0.001791 0.004699 0.0003015 0.6522
Verrucomicrobiales control 0.003447 0.006657 0.0000000 0.3889
Verrucomicrobiales patient 0.010557 0.036854 0.0000000 0.3478
Unclassified_Firmicutes control 0.008503 0.010888 0.0038308 1.0000
Unclassified_Firmicutes patient 0.002429 0.003396 0.0008410 0.8696
Rhizobiales control 0.006004 0.005771 0.0049563 0.8889
Rhizobiales patient 0.001805 0.003058 0.0003015 0.5652

(1.2.1.2.6.2.2.2.1.1.1) Figure 271. Abundance. Data grouped by Sample.type. bar_stacked plot. Image file: plots/32326242a17.svg.

(1.2.1.2.6.2.2.2.1.1.1) Figure 272. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/32342be0fe9.svg.

(1.2.1.2.6.2.2.2.1.1.1) Figure 273. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/3235b0e32e6.svg.

(1.2.1.2.6.2.2.2.1.1.1) Figure 274. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/3233f80f535.svg.

(1.2.1.2.6.2.2.2.1.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.2.6.2.2.2.1.2.1) Figure 275. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/3237c885b27.svg.

(1.2.1.2.6.2.2.2.1.2.1) Figure 276. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/323266cbe7d.svg.

(1.2.1.2.6.2.2.2.1.2.1) Figure 277. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/32377d66914.svg.

(1.2.1.2.6.2.2.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.2.1.2.6.2.2.2.2.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.2.6.2.2.2.2.1.1) Figure 278. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/323177b1910.svg.

(1.2.1.2.6.2.2.2.2.1.1) Figure 279. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/32316f67908.svg.

(1.2.1.2.6.2.2.2.2.1.1) Figure 280. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/3232a2e3396.svg.

(1.2.1.2.6.2.2.2.2.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.2.6.2.2.2.2.2.1) Figure 281. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/323214fcc5b.svg.

(1.2.1.2.6.2.2.2.2.2.1) Figure 282. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/3235d16bd6f.svg.

(1.2.1.2.6.2.2.2.2.2.1) Figure 283. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/3237c927973.svg.

(1.2.1.2.6.2.3) Grouping variables Sample.type,age.quant
(1.2.1.2.6.2.4) Iterating over Abundance. profile sorting order
(1.2.1.2.6.2.4.1) Abundance. profile sorting order: average abundance
(1.2.1.2.6.2.4.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.2.1.2.6.2.4.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.2.1.2.6.2.4.2.1.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.2.6.2.4.2.1.1.0) Table 82. Data table used for plots. Data grouped by Sample.type,age.quant. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.2.6.2.4.2.1.1.0-3232b9f902e.1.2.1.2.6.2.4.2.1.1.csv

.record.id Sample.type age.quant feature Abundance
SB1 control (8.71,15.3] Bacteroidales 6.847e-01
SB10 control (15.3,26.4] Bacteroidales 5.637e-01
SB11 patient (8.71,15.3] Bacteroidales 7.549e-01
SB12 control [3.18,6.27] Bacteroidales 0.000e+00
SB13 control (6.27,8.71] Bacteroidales 2.192e-01
SB14 control (8.71,15.3] Bacteroidales 7.866e-01
SB15 control (8.71,15.3] Bacteroidales 5.338e-01
SB16 patient (15.3,26.4] Bacteroidales 8.184e-01
SB17 patient (15.3,26.4] Bacteroidales 8.665e-01
SB18 patient (15.3,26.4] Bacteroidales 8.870e-01
SB19 control (15.3,26.4] Bacteroidales 2.318e-01
SB21 control [3.18,6.27] Bacteroidales 1.706e-01
SB22 patient (6.27,8.71] Bacteroidales 6.107e-01
SB23 patient (15.3,26.4] Bacteroidales 7.781e-01
SB24 control (8.71,15.3] Bacteroidales 7.186e-01
SB25 control (8.71,15.3] Bacteroidales 6.151e-01
SB26 control (6.27,8.71] Bacteroidales 5.050e-01
SB28 patient (6.27,8.71] Bacteroidales 6.904e-01
SB29 patient (6.27,8.71] Bacteroidales 9.046e-01
SB3 control [3.18,6.27] Bacteroidales 4.112e-01
SB30 patient (6.27,8.71] Bacteroidales 8.563e-01
SB31 control (8.71,15.3] Bacteroidales 6.462e-01
SB32 control (15.3,26.4] Bacteroidales 4.112e-01
SB33 control (8.71,15.3] Bacteroidales 8.224e-01
SB34 patient (15.3,26.4] Bacteroidales 7.837e-01
SB35 patient (8.71,15.3] Bacteroidales 9.715e-01
SB36 patient [3.18,6.27] Bacteroidales 8.668e-01
SB38 patient (15.3,26.4] Bacteroidales 9.342e-01
SB39 patient (8.71,15.3] Bacteroidales 5.559e-01
SB4 patient [3.18,6.27] Bacteroidales 9.322e-01
SB40 control [3.18,6.27] Bacteroidales 5.366e-01
SB41 patient (6.27,8.71] Bacteroidales 9.279e-01
SB42 patient [3.18,6.27] Bacteroidales 6.376e-01
SB43 patient (15.3,26.4] Bacteroidales 8.858e-01
SB44 patient [3.18,6.27] Bacteroidales 8.254e-01
SB45 control (15.3,26.4] Bacteroidales 8.778e-01
SB5 patient (15.3,26.4] Bacteroidales 9.827e-02
SB6 patient (6.27,8.71] Bacteroidales 8.250e-01
SB7 control (15.3,26.4] Bacteroidales 4.786e-01
SB8 patient (15.3,26.4] Bacteroidales 5.680e-01
SB9 patient (8.71,15.3] Bacteroidales 6.361e-02
SB1 control (8.71,15.3] Clostridiales 1.664e-01
SB10 control (15.3,26.4] Clostridiales 3.025e-01
SB11 patient (8.71,15.3] Clostridiales 1.670e-01
SB12 control [3.18,6.27] Clostridiales 3.292e-01
SB13 control (6.27,8.71] Clostridiales 6.268e-01
SB14 control (8.71,15.3] Clostridiales 1.877e-01
SB15 control (8.71,15.3] Clostridiales 2.131e-01
SB16 patient (15.3,26.4] Clostridiales 1.038e-01
SB17 patient (15.3,26.4] Clostridiales 8.129e-02
SB18 patient (15.3,26.4] Clostridiales 2.821e-02
SB19 control (15.3,26.4] Clostridiales 3.252e-01
SB21 control [3.18,6.27] Clostridiales 7.320e-01
SB22 patient (6.27,8.71] Clostridiales 2.891e-01
SB23 patient (15.3,26.4] Clostridiales 1.938e-01
SB24 control (8.71,15.3] Clostridiales 2.252e-01
SB25 control (8.71,15.3] Clostridiales 2.988e-01
SB26 control (6.27,8.71] Clostridiales 4.550e-01
SB28 patient (6.27,8.71] Clostridiales 4.996e-02
SB29 patient (6.27,8.71] Clostridiales 8.819e-02
SB3 control [3.18,6.27] Clostridiales 5.011e-01
SB30 patient (6.27,8.71] Clostridiales 9.994e-02
SB31 control (8.71,15.3] Clostridiales 3.152e-01
SB32 control (15.3,26.4] Clostridiales 4.996e-01
SB33 control (8.71,15.3] Clostridiales 1.502e-01
SB34 patient (15.3,26.4] Clostridiales 1.709e-01
SB35 patient (8.71,15.3] Clostridiales 2.529e-02
SB36 patient [3.18,6.27] Clostridiales 7.040e-02
SB38 patient (15.3,26.4] Clostridiales 4.334e-02
SB39 patient (8.71,15.3] Clostridiales 1.723e-01
SB4 patient [3.18,6.27] Clostridiales 5.216e-02
SB40 control [3.18,6.27] Clostridiales 3.756e-01
SB41 patient (6.27,8.71] Clostridiales 6.299e-02
SB42 patient [3.18,6.27] Clostridiales 2.363e-01
SB43 patient (15.3,26.4] Clostridiales 5.785e-02
SB44 patient [3.18,6.27] Clostridiales 1.565e-01
SB45 control (15.3,26.4] Clostridiales 6.822e-02
SB5 patient (15.3,26.4] Clostridiales 6.445e-01
SB6 patient (6.27,8.71] Clostridiales 1.294e-01
SB7 control (15.3,26.4] Clostridiales 4.844e-01
SB8 patient (15.3,26.4] Clostridiales 3.925e-01
SB9 patient (8.71,15.3] Clostridiales 3.018e-01
SB1 control (8.71,15.3] Erysipelotrichales 9.093e-04
SB10 control (15.3,26.4] Erysipelotrichales 5.791e-02
SB11 patient (8.71,15.3] Erysipelotrichales 1.339e-02
SB12 control [3.18,6.27] Erysipelotrichales 0.000e+00
SB13 control (6.27,8.71] Erysipelotrichales 5.062e-02
SB14 control (8.71,15.3] Erysipelotrichales 2.063e-03
SB15 control (8.71,15.3] Erysipelotrichales 8.963e-04
SB16 patient (15.3,26.4] Erysipelotrichales 2.813e-02
SB17 patient (15.3,26.4] Erysipelotrichales 2.444e-03
SB18 patient (15.3,26.4] Erysipelotrichales 1.550e-03
SB19 control (15.3,26.4] Erysipelotrichales 1.761e-04
SB21 control [3.18,6.27] Erysipelotrichales 4.859e-03
SB22 patient (6.27,8.71] Erysipelotrichales 8.445e-03
SB23 patient (15.3,26.4] Erysipelotrichales 1.425e-02
SB24 control (8.71,15.3] Erysipelotrichales 1.291e-03
SB25 control (8.71,15.3] Erysipelotrichales 7.673e-03
SB26 control (6.27,8.71] Erysipelotrichales 8.864e-03
SB28 patient (6.27,8.71] Erysipelotrichales 1.180e-02
SB29 patient (6.27,8.71] Erysipelotrichales 1.440e-03
SB3 control [3.18,6.27] Erysipelotrichales 2.073e-03
SB30 patient (6.27,8.71] Erysipelotrichales 1.181e-02
SB31 control (8.71,15.3] Erysipelotrichales 1.377e-02
SB32 control (15.3,26.4] Erysipelotrichales 1.006e-02
SB33 control (8.71,15.3] Erysipelotrichales 2.354e-03
SB34 patient (15.3,26.4] Erysipelotrichales 1.238e-02
SB35 patient (8.71,15.3] Erysipelotrichales 0.000e+00
SB36 patient [3.18,6.27] Erysipelotrichales 0.000e+00
SB38 patient (15.3,26.4] Erysipelotrichales 1.457e-03
SB39 patient (8.71,15.3] Erysipelotrichales 2.415e-02
SB4 patient [3.18,6.27] Erysipelotrichales 6.030e-03
SB40 control [3.18,6.27] Erysipelotrichales 7.497e-03
SB41 patient (6.27,8.71] Erysipelotrichales 7.525e-04
SB42 patient [3.18,6.27] Erysipelotrichales 6.306e-03
SB43 patient (15.3,26.4] Erysipelotrichales 8.639e-03
SB44 patient [3.18,6.27] Erysipelotrichales 4.942e-03
SB45 control (15.3,26.4] Erysipelotrichales 4.583e-03
SB5 patient (15.3,26.4] Erysipelotrichales 4.750e-02
SB6 patient (6.27,8.71] Erysipelotrichales 2.595e-03
SB7 control (15.3,26.4] Erysipelotrichales 7.360e-03
SB8 patient (15.3,26.4] Erysipelotrichales 1.244e-02
SB9 patient (8.71,15.3] Erysipelotrichales 3.874e-01
SB1 control (8.71,15.3] Enterobacteriales 4.546e-04
SB10 control (15.3,26.4] Enterobacteriales 8.516e-05
SB11 patient (8.71,15.3] Enterobacteriales 8.929e-04
SB12 control [3.18,6.27] Enterobacteriales 3.081e-01
SB13 control (6.27,8.71] Enterobacteriales 4.401e-04
SB14 control (8.71,15.3] Enterobacteriales 0.000e+00
SB15 control (8.71,15.3] Enterobacteriales 4.137e-04
SB16 patient (15.3,26.4] Enterobacteriales 1.489e-02
SB17 patient (15.3,26.4] Enterobacteriales 2.572e-04
SB18 patient (15.3,26.4] Enterobacteriales 0.000e+00
SB19 control (15.3,26.4] Enterobacteriales 1.761e-03
SB21 control [3.18,6.27] Enterobacteriales 3.059e-03
SB22 patient (6.27,8.71] Enterobacteriales 3.839e-04
SB23 patient (15.3,26.4] Enterobacteriales 0.000e+00
SB24 control (8.71,15.3] Enterobacteriales 2.869e-04
SB25 control (8.71,15.3] Enterobacteriales 5.328e-03
SB26 control (6.27,8.71] Enterobacteriales 0.000e+00
SB28 patient (6.27,8.71] Enterobacteriales 2.380e-01
SB29 patient (6.27,8.71] Enterobacteriales 0.000e+00
SB3 control [3.18,6.27] Enterobacteriales 4.145e-04
SB30 patient (6.27,8.71] Enterobacteriales 0.000e+00
SB31 control (8.71,15.3] Enterobacteriales 6.593e-04
SB32 control (15.3,26.4] Enterobacteriales 0.000e+00
SB33 control (8.71,15.3] Enterobacteriales 0.000e+00
SB34 patient (15.3,26.4] Enterobacteriales 8.659e-05
SB35 patient (8.71,15.3] Enterobacteriales 0.000e+00
SB36 patient [3.18,6.27] Enterobacteriales 0.000e+00
SB38 patient (15.3,26.4] Enterobacteriales 0.000e+00
SB39 patient (8.71,15.3] Enterobacteriales 0.000e+00
SB4 patient [3.18,6.27] Enterobacteriales 0.000e+00
SB40 control [3.18,6.27] Enterobacteriales 3.570e-04
SB41 patient (6.27,8.71] Enterobacteriales 0.000e+00
SB42 patient [3.18,6.27] Enterobacteriales 0.000e+00
SB43 patient (15.3,26.4] Enterobacteriales 2.912e-04
SB44 patient [3.18,6.27] Enterobacteriales 1.098e-03
SB45 control (15.3,26.4] Enterobacteriales 1.498e-03
SB5 patient (15.3,26.4] Enterobacteriales 1.462e-01
SB6 patient (6.27,8.71] Enterobacteriales 0.000e+00
SB7 control (15.3,26.4] Enterobacteriales 0.000e+00
SB8 patient (15.3,26.4] Enterobacteriales 2.690e-03
SB9 patient (8.71,15.3] Enterobacteriales 3.408e-03
SB1 control (8.71,15.3] Lactobacillales 2.273e-04
SB10 control (15.3,26.4] Lactobacillales 1.703e-03
SB11 patient (8.71,15.3] Lactobacillales 0.000e+00
SB12 control [3.18,6.27] Lactobacillales 6.832e-02
SB13 control (6.27,8.71] Lactobacillales 8.803e-04
SB14 control (8.71,15.3] Lactobacillales 0.000e+00
SB15 control (8.71,15.3] Lactobacillales 7.612e-02
SB16 patient (15.3,26.4] Lactobacillales 1.241e-03
SB17 patient (15.3,26.4] Lactobacillales 6.431e-04
SB18 patient (15.3,26.4] Lactobacillales 7.278e-02
SB19 control (15.3,26.4] Lactobacillales 1.862e-01
SB21 control [3.18,6.27] Lactobacillales 4.319e-03
SB22 patient (6.27,8.71] Lactobacillales 3.071e-03
SB23 patient (15.3,26.4] Lactobacillales 1.345e-04
SB24 control (8.71,15.3] Lactobacillales 8.606e-04
SB25 control (8.71,15.3] Lactobacillales 2.131e-03
SB26 control (6.27,8.71] Lactobacillales 2.955e-03
SB28 patient (6.27,8.71] Lactobacillales 7.868e-04
SB29 patient (6.27,8.71] Lactobacillales 0.000e+00
SB3 control [3.18,6.27] Lactobacillales 2.073e-04
SB30 patient (6.27,8.71] Lactobacillales 1.514e-04
SB31 control (8.71,15.3] Lactobacillales 3.663e-04
SB32 control (15.3,26.4] Lactobacillales 1.393e-03
SB33 control (8.71,15.3] Lactobacillales 2.871e-04
SB34 patient (15.3,26.4] Lactobacillales 4.329e-04
SB35 patient (8.71,15.3] Lactobacillales 1.606e-03
SB36 patient [3.18,6.27] Lactobacillales 3.805e-04
SB38 patient (15.3,26.4] Lactobacillales 1.821e-04
SB39 patient (8.71,15.3] Lactobacillales 4.831e-03
SB4 patient [3.18,6.27] Lactobacillales 3.316e-03
SB40 control [3.18,6.27] Lactobacillales 3.570e-04
SB41 patient (6.27,8.71] Lactobacillales 8.853e-05
SB42 patient [3.18,6.27] Lactobacillales 1.443e-03
SB43 patient (15.3,26.4] Lactobacillales 9.707e-05
SB44 patient [3.18,6.27] Lactobacillales 0.000e+00
SB45 control (15.3,26.4] Lactobacillales 8.814e-05

(1.2.1.2.6.2.4.2.1.1.1) Widget 85. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Sample.type,age.quant. Click to see HTML widget file in full window: ./1.2.1.2.6.2.4.2.1.1.1-3231135fe23Dynamic.Pivot.Table.html

(1.2.1.2.6.2.4.2.1.1.1) Widget 86. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Sample.type,age.quant. Click to see HTML widget file in full window: ./1.2.1.2.6.2.4.2.1.1.1-3232ab4d40bDynamic.Pivot.Table.html

(1.2.1.2.6.2.4.2.1.1.1) Table 83. Summary table. Data grouped by Sample.type,age.quant. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.2.6.2.4.2.1.1.1-3233b45e5a2.1.2.1.2.6.2.4.2.1.1.csv

feature Sample.type age.quant mean sd median incidence
Bacteroidales control [3.18,6.27] 2.796e-01 2.404e-01 2.909e-01 0.7500
Bacteroidales control (6.27,8.71] 3.621e-01 2.021e-01 3.621e-01 1.0000
Bacteroidales control (8.71,15.3] 6.868e-01 9.964e-02 6.847e-01 1.0000
Bacteroidales control (15.3,26.4] 5.126e-01 2.378e-01 4.786e-01 1.0000
Bacteroidales patient [3.18,6.27] 8.155e-01 1.265e-01 8.461e-01 1.0000
Bacteroidales patient (6.27,8.71] 8.025e-01 1.256e-01 8.407e-01 1.0000
Bacteroidales patient (8.71,15.3] 5.865e-01 3.877e-01 6.554e-01 1.0000
Bacteroidales patient (15.3,26.4] 7.355e-01 2.616e-01 8.184e-01 1.0000
Clostridiales control [3.18,6.27] 4.845e-01 1.803e-01 4.384e-01 1.0000
Clostridiales control (6.27,8.71] 5.409e-01 1.214e-01 5.409e-01 1.0000
Clostridiales control (8.71,15.3] 2.224e-01 6.336e-02 2.131e-01 1.0000
Clostridiales control (15.3,26.4] 3.360e-01 1.745e-01 3.252e-01 1.0000
Clostridiales patient [3.18,6.27] 1.288e-01 8.486e-02 1.135e-01 1.0000
Clostridiales patient (6.27,8.71] 1.199e-01 8.745e-02 9.407e-02 1.0000
Clostridiales patient (8.71,15.3] 1.666e-01 1.130e-01 1.696e-01 1.0000
Clostridiales patient (15.3,26.4] 1.907e-01 2.038e-01 1.038e-01 1.0000
Erysipelotrichales control [3.18,6.27] 3.607e-03 3.269e-03 3.466e-03 0.7500
Erysipelotrichales control (6.27,8.71] 2.974e-02 2.952e-02 2.974e-02 1.0000
Erysipelotrichales control (8.71,15.3] 4.137e-03 4.862e-03 2.063e-03 1.0000
Erysipelotrichales control (15.3,26.4] 1.602e-02 2.370e-02 7.360e-03 1.0000
Erysipelotrichales patient [3.18,6.27] 4.319e-03 2.939e-03 5.486e-03 0.7500
Erysipelotrichales patient (6.27,8.71] 6.141e-03 5.162e-03 5.520e-03 1.0000
Erysipelotrichales patient (8.71,15.3] 1.062e-01 1.877e-01 1.877e-02 0.7500
Erysipelotrichales patient (15.3,26.4] 1.431e-02 1.500e-02 1.238e-02 1.0000
Enterobacteriales control [3.18,6.27] 7.799e-02 1.534e-01 1.737e-03 1.0000
Enterobacteriales control (6.27,8.71] 2.201e-04 3.112e-04 2.201e-04 0.5000
Enterobacteriales control (8.71,15.3] 1.020e-03 1.915e-03 4.137e-04 0.7143
Enterobacteriales control (15.3,26.4] 6.690e-04 8.828e-04 8.516e-05 0.6000
Enterobacteriales patient [3.18,6.27] 2.746e-04 5.491e-04 0.000e+00 0.2500
Enterobacteriales patient (6.27,8.71] 3.973e-02 9.713e-02 0.000e+00 0.3333
Enterobacteriales patient (8.71,15.3] 1.075e-03 1.611e-03 4.464e-04 0.5000
Enterobacteriales patient (15.3,26.4] 1.827e-02 4.822e-02 2.572e-04 0.6667
Lactobacillales control [3.18,6.27] 1.830e-02 3.340e-02 2.338e-03 1.0000
Lactobacillales control (6.27,8.71] 1.917e-03 1.467e-03 1.917e-03 1.0000
Lactobacillales control (8.71,15.3] 1.143e-02 2.853e-02 3.663e-04 0.8571
Lactobacillales control (15.3,26.4] 3.819e-02 8.274e-02 1.557e-03 1.0000
Lactobacillales patient [3.18,6.27] 1.285e-03 1.486e-03 9.120e-04 0.7500
Lactobacillales patient (6.27,8.71] 9.301e-04 1.191e-03 4.691e-04 0.8333
Lactobacillales patient (8.71,15.3] 4.922e-02 9.418e-02 3.218e-03 0.7500
Lactobacillales patient (15.3,26.4] 1.127e-02 2.424e-02 6.431e-04 1.0000
Selenomonadales control [3.18,6.27] 9.190e-03 1.042e-02 6.587e-03 1.0000
Selenomonadales control (6.27,8.71] 7.087e-04 2.426e-04 7.087e-04 1.0000
Selenomonadales control (8.71,15.3] 2.670e-02 5.328e-02 3.094e-03 0.8571
Selenomonadales control (15.3,26.4] 3.870e-02 8.119e-02 3.662e-03 1.0000
Selenomonadales patient [3.18,6.27] 1.308e-03 1.119e-03 1.289e-03 1.0000
Selenomonadales patient (6.27,8.71] 1.117e-02 2.390e-02 1.356e-03 1.0000
Selenomonadales patient (8.71,15.3] 8.000e-03 9.343e-03 7.143e-03 0.5000
Selenomonadales patient (15.3,26.4] 4.114e-03 6.157e-03 1.513e-03 1.0000
Unclassified_Bacteria control [3.18,6.27] 3.150e-02 1.296e-02 3.515e-02 1.0000
Unclassified_Bacteria control (6.27,8.71] 1.413e-02 3.183e-03 1.413e-02 1.0000
Unclassified_Bacteria control (8.71,15.3] 8.804e-03 6.898e-03 4.902e-03 1.0000
Unclassified_Bacteria control (15.3,26.4] 8.650e-03 4.090e-03 6.967e-03 1.0000
Unclassified_Bacteria patient [3.18,6.27] 2.542e-02 4.342e-02 4.886e-03 1.0000
Unclassified_Bacteria patient (6.27,8.71] 6.112e-03 7.995e-03 2.421e-03 1.0000
Unclassified_Bacteria patient (8.71,15.3] 4.959e-03 3.460e-03 5.899e-03 0.7500
Unclassified_Bacteria patient (15.3,26.4] 4.365e-03 4.145e-03 3.658e-03 1.0000
Burkholderiales control [3.18,6.27] 2.416e-03 2.126e-03 2.241e-03 0.7500
Burkholderiales control (6.27,8.71] 8.058e-04 1.140e-03 8.058e-04 0.5000
Burkholderiales control (8.71,15.3] 1.884e-02 4.305e-02 2.192e-03 1.0000
Burkholderiales control (15.3,26.4] 1.423e-02 1.490e-02 9.959e-03 0.8000
Burkholderiales patient [3.18,6.27] 1.901e-02 2.691e-02 9.109e-03 0.7500
Burkholderiales patient (6.27,8.71] 2.996e-03 4.660e-03 9.784e-05 0.6667
Burkholderiales patient (8.71,15.3] 2.577e-03 2.410e-03 2.577e-03 0.7500
Burkholderiales patient (15.3,26.4] 1.160e-02 1.384e-02 7.447e-03 0.8889
Bifidobacteriales control [3.18,6.27] 5.198e-02 9.218e-02 8.726e-03 1.0000
Bifidobacteriales control (6.27,8.71] 6.207e-03 1.181e-03 6.207e-03 1.0000
Bifidobacteriales control (8.71,15.3] 2.163e-03 2.035e-03 1.586e-03 1.0000
Bifidobacteriales control (15.3,26.4] 7.125e-03 1.523e-02 0.000e+00 0.4000
Bifidobacteriales patient [3.18,6.27] 1.029e-03 1.508e-03 4.253e-04 0.7500
Bifidobacteriales patient (6.27,8.71] 4.403e-04 6.691e-04 2.524e-05 0.5000
Bifidobacteriales patient (8.71,15.3] 7.789e-03 1.000e-02 5.112e-03 0.5000
Bifidobacteriales patient (15.3,26.4] 3.633e-04 3.749e-04 3.363e-04 0.7778
Verrucomicrobiales control [3.18,6.27] 5.723e-03 8.249e-03 2.699e-03 0.5000
Verrucomicrobiales control (6.27,8.71] 4.536e-03 6.035e-03 4.536e-03 1.0000
Verrucomicrobiales control (8.71,15.3] 4.297e-03 8.418e-03 0.000e+00 0.4286
Verrucomicrobiales control (15.3,26.4] 0.000e+00 0.000e+00 0.000e+00 0.0000
Verrucomicrobiales patient [3.18,6.27] 4.178e-04 8.357e-04 0.000e+00 0.2500
Verrucomicrobiales patient (6.27,8.71] 5.779e-03 1.116e-02 4.426e-05 0.5000
Verrucomicrobiales patient (8.71,15.3] 5.159e-02 8.361e-02 1.558e-02 0.7500
Verrucomicrobiales patient (15.3,26.4] 1.079e-05 3.236e-05 0.000e+00 0.1111
Unclassified_Firmicutes control [3.18,6.27] 1.733e-02 1.911e-02 1.140e-02 1.0000
Unclassified_Firmicutes control (6.27,8.71] 5.170e-03 3.893e-03 5.170e-03 1.0000
Unclassified_Firmicutes control (8.71,15.3] 4.399e-03 3.706e-03 2.725e-03 1.0000
Unclassified_Firmicutes control (15.3,26.4] 8.517e-03 9.620e-03 4.051e-03 1.0000
Unclassified_Firmicutes patient [3.18,6.27] 5.802e-04 6.260e-04 4.388e-04 0.7500
Unclassified_Firmicutes patient (6.27,8.71] 5.403e-04 3.098e-04 6.376e-04 0.8333
Unclassified_Firmicutes patient (8.71,15.3] 5.489e-03 5.692e-03 4.351e-03 0.7500
Unclassified_Firmicutes patient (15.3,26.4] 3.149e-03 3.116e-03 1.961e-03 1.0000
Rhizobiales control [3.18,6.27] 8.838e-03 7.921e-03 7.902e-03 1.0000
Rhizobiales control (6.27,8.71] 0.000e+00 0.000e+00 0.000e+00 0.0000
Rhizobiales control (8.71,15.3] 4.561e-03 4.064e-03 4.049e-03 1.0000
Rhizobiales control (15.3,26.4] 8.159e-03 5.849e-03 8.825e-03 1.0000
Rhizobiales patient [3.18,6.27] 5.510e-04 9.122e-04 1.507e-04 0.5000
Rhizobiales patient (6.27,8.71] 1.918e-04 4.698e-04 0.000e+00 0.1667
Rhizobiales patient (8.71,15.3] 3.168e-03 5.843e-03 3.786e-04 0.5000
Rhizobiales patient (15.3,26.4] 2.832e-03 2.758e-03 2.152e-03 0.8889

(1.2.1.2.6.2.4.2.1.1.1) Figure 284. Abundance. Data grouped by Sample.type,age.quant. bar_stacked plot. Image file: plots/323691fe310.svg.

(1.2.1.2.6.2.4.2.1.1.1) Figure 285. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/3236dc6c1ec.svg.

(1.2.1.2.6.2.4.2.1.1.1) Figure 286. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/32345b97349.svg.

(1.2.1.2.6.2.4.2.1.1.1) Figure 287. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/3231bb68a94.svg.

(1.2.1.2.6.2.4.2.1.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.2.6.2.4.2.1.2.1) Figure 288. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/3232260db77.svg.

(1.2.1.2.6.2.4.2.1.2.1) Figure 289. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/32337b87654.svg.

(1.2.1.2.6.2.4.2.1.2.1) Figure 290. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/32367369624.svg.

(1.2.1.2.6.2.4.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.2.1.2.6.2.4.2.2.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.2.6.2.4.2.2.1.1) Figure 291. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/32322bac30b.svg.

(1.2.1.2.6.2.4.2.2.1.1) Figure 292. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/32322068ba7.svg.

(1.2.1.2.6.2.4.2.2.1.1) Figure 293. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/323508c0d14.svg.

(1.2.1.2.6.2.4.2.2.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.2.6.2.4.2.2.2.1) Figure 294. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/32355a1273a.svg.

(1.2.1.2.6.2.4.2.2.2.1) Figure 295. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/3231542926e.svg.

(1.2.1.2.6.2.4.2.2.2.1) Figure 296. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/3237ae9ec2e.svg.

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